5FN8

Crystal structure of rat CD45 extracellular region, domains d3-d4

• PDB DOI: https://doi.org/10.2210/pdb5FN8/pdb

• Classification: HYDROLASE
• Organism(s): Rattus norvegicus
• Expression System: Cricetulus griseus
• Mutation(s): No 


• Deposited: 2015-11-11 Released: 2016-03-23 
• Deposition Author(s): Chang, V.T., Fernandes, R.A., Ganzinger, K.A., Lee, S.F., Siebold, C., McColl, J., Jonsson, P., Palayret, M., Harlos, K., Coles, C.H., Jones, E.Y., Lui, Y., Huang, E., Gilbert, R.J.C., Klenerman, D., Aricescu, A.R., Davis, S.J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.45 Å
• R-Value Free: 0.236 
• R-Value Work: 0.214 
• R-Value Observed: 0.215 

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 generated by PISA (software)

Biological Assembly 2  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 2 generated by PISA (software)

Biological Assembly 3  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 3 assigned by authors.

Biological Assembly 4  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 4 assigned by authors.

Macromolecule Content

• Total Structure Weight: 44.39 kDa 
• Atom Count: 2,975 
• Modelled Residue Count: 356 
• Deposited Residue Count: 380 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
RECEPTOR-TYPE TYROSINE-PROTEIN PHOSPHATASE C	A, B	190	Rattus norvegicus	Mutation(s): 0  EC: 3.1.3.48
UniProt
Find proteins for P04157 (Rattus norvegicus) Explore P04157  Go to UniProtKB:  P04157

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAG	C [auth A], D [auth A], E [auth A], G [auth B], H [auth B], I [auth B]	2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N
FLC	F [auth A]	CITRATE ANION C6 H5 O7 KRKNYBCHXYNGOX-UHFFFAOYSA-K

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.45 Å
• R-Value Free: 0.236 
• R-Value Work: 0.214 
• R-Value Observed: 0.215 
• Space Group: I 2 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 84.41	α = 90
b = 131.16	β = 90
c = 141.31	γ = 90

Software Package:

Software Name	Purpose
xia2	data reduction
xia2	data scaling
SHELXD	phasing
autoSHARP	phasing
BUSTER	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 2016-03-23 
Deposition Author(s): Chang, V.T., Fernandes, R.A., Ganzinger, K.A., Lee, S.F., Siebold, C., McColl, J., Jonsson, P., Palayret, M., Harlos, K., Coles, C.H., Jones, E.Y., Lui, Y., Huang, E., Gilbert, R.J.C., Klenerman, D., Aricescu, A.R., Davis, S.J.

Revision History  

• Version 1.0: 2016-03-23
  Type: Initial release
  
• Version 1.1: 2016-03-30
  Changes: Database references
• Version 1.2: 2016-04-27
  Changes: Database references, Other, Refinement description
• Version 1.3: 2016-05-04
  Changes: Database references
• Version 1.4: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Data collection, Derived calculations, Other, Structure summary